J3_1VY5_042

3D structure

PDB id

1VY5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

AC*GAUAAGC*GAUGU

Length

14 nucleotides

Bulged bases

1VY5|1|DA|A|74

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J3_1VY5_042 not in the Motif Atlas

Homologous match to J3_7RQB_002

Geometric discrepancy: 0.0817

The information below is about J3_7RQB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_84625.2

Basepair signature

cWW-F-cWW-F-F-F-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

1VY5|1|DA|A|56
1VY5|1|DA|C|57
*
1VY5|1|DA|G|70
1VY5|1|DA|A|71
1VY5|1|DA|U|72
1VY5|1|DA|A|73
1VY5|1|DA|A|74
1VY5|1|DA|G|75
1VY5|1|DA|C|76
*
1VY5|1|DA|G|110
1VY5|1|DA|A|111
1VY5|1|DA|U|112
1VY5|1|DA|G|113
1VY5|1|DA|U|114

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D2

50S ribosomal protein L29

Chain D7

50S ribosomal protein L34

Chain DX

50S ribosomal protein L23